recipe snpeff

Genetic variant annotation and effect prediction toolbox

Homepage:

http://snpeff.sourceforge.net/

License:

LGPLv3

Recipe:

/snpeff/meta.yaml

Links:

biotools: snpeff

package snpeff

Versions:

5.1-2,  5.1-1,  5.1-0,  5.1d-0,  5.0-1,  5.0-0,  4.5covid19-2,  4.5covid19-1,  4.5covid19-0, 

5.1-2,  5.1-1,  5.1-0,  5.1d-0,  5.0-1,  5.0-0,  4.5covid19-2,  4.5covid19-1,  4.5covid19-0,  4.3.1t-5,  4.3.1t-4,  4.3.1t-3,  4.3.1t-2,  4.3.1t-1,  4.3.1t-0,  4.3.1r-0,  4.3.1q-0,  4.3.1p-1,  4.3.1p-0,  4.3.1o-0,  4.3.1m-0,  4.3.1k-0,  4.3-3,  4.3-2,  4.3-1,  4.3-0,  4.3k-0,  4.3i-0,  4.3g-0,  4.3b-0,  4.2-0,  4.1l-8,  4.1l-7,  4.1l-6,  4.1l-5,  4.1l-4,  4.1l-3,  4.1l-2,  4.1l-1,  4.1l-0,  3_6-0

Depends:

• openjdk >=11

• python

• zlib

Required By:

• genomics-data-index

• mutmap

• nullarbor

• pathogen-profiler

• snippy

• harvest-variants

• bactopia-variants

• macaron

• qtlseq

• uvp

• pgcgap

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install snpeff

and update with:

conda update snpeff

or use the docker container:

docker pull quay.io/biocontainers/snpeff:<tag>

(see snpeff/tags for valid values for <tag>)

Notes

The tool is available as command `snpEff`. Note that the package version is slightly different from upstream, this is to make sure conda will order the package versions correctly.

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